Table 2: List of some plant species used in this study, their taxonomy (according to NCBI Taxonomy: http://www.ncbi.nlm.nih.gov/taxonomy) and the results of in silico mining of chromodomains by LTR retrotransposon clades. The full list is available in Supporting Information Table in Supplementary Material available online at doi: 10.1155/2012/874743.

Class Order Family Species EST GSS/WGS Chlamyvir Other Chlamyvir other Bangiophyceae Bangiales Bangiaceae Porphyra yezoensis — — NA NA Cyanidiales Cyanidiaceae Galdieria sulphuraria — — NA NA Trebouxiophyceae Chlorellales Chlorellaceae Chlorella vulgaris — — 7 — Chlorophyceae Chlamydomonadales Chlamydomonadaceae Chlamydomonas reinhardtii — — 13 3 Volvocaceae Volvox carteri f. nagariensis 3 — 241 20 Reina Tekay Galadriel Reina Tekay Galadriel Lycopodiopsida Lycopodiales Lycopodiaceae Huperzia serrata — — — NA NA NA Polypodiopsida Polypodiales Pteridaceae Adiantum capillus-veneris — 1 — NA NA NA Coniferopsida Coniferales Pinaceae Picea glauca 6 2 — — — — Pinus taeda 4 5 — 18 2 — Pinus banksiana 9 3 — — — — Monocotyledons Poales Poaceae Triticum aestivum 37 5 — 10 91 — Brachypodium distachyon 11 — — 46 371 — Oryza sativa Indica Group 5 1 — 64 239 — Oryza sativa Japonica Group 55 6 — 23 78 — Sorghum bicolor 14 — — 18 >1000 — Zea mays 53 105 — 600 >10000 — Eudicotyledons Solanales Solanaceae Solanum lycopersicum — 11 — 17 >1000 80 Solanum tuberosum 2 8 1 11 >1000 12 Nicotiana tabacum 23 39 2 185 2973 297 Lamiales Phrymaceae Mimulus guttatus 2 — 1 16 370 13 Brassicales Brassicaceae Arabidopsis thaliana 2 6 — 14 23 — Brassica napus 2 3 — 5 99 2 Sapindales Rutaceae Citrus clementina — — 1 11 8 35 Fabales Fabaceae Glycine max 1 2 — 22 252 — Lotus japonicus 2 3 — 8 62 — Vitales Vitaceae Vitis vinifera — 4 4 18 59 327

NA: no data available.